Gene Page:TGFBRAP1

Summary?
GeneID 9392
Symbol TGFBRAP1
Synonyms TRAP-1|TRAP1|VPS3
Description transforming growth factor beta receptor associated protein 1
Reference MIM:606237|HGNC:HGNC:16836|Ensembl:ENSG00000135966|HPRD:06948|Vega:OTTHUMG00000130809
Gene type protein-coding
Map location 2q12.1
Pascal p-value 0.027
Fetal beta -0.091
DMG 1 (# studies)
eGene Myers' cis & trans

Gene in Data Sources
Gene set name Method of gene set Description Info
CV:PGCnp Genome-wide Association Study GWAS
DMG:Wockner_2014 Genome-wide DNA methylation analysis This dataset includes 4641 differentially methylated probes corresponding to 2929 unique genes between schizophrenia patients (n=24) and controls (n=24). 1
GSMA_I Genome scan meta-analysis Psr: 0.0004
GSMA_IIA Genome scan meta-analysis (All samples) Psr: 0.00755

Section I. Genetics and epigenetics annotation

@Differentially methylated gene

Probe Chromosome Position Nearest gene P (dis) Beta (dis) FDR (dis) Study
cg14459716 2 105889560 TGFBRAP1 3.926E-4 0.458 0.043 DMG:Wockner_2014

@eQTL annotation

SNP ID Chromosome Position eGene Gene Entrez ID pvalue qvalue TSS distance eQTL type
rs7595584 chr2 175652187 TGFBRAP1 9392 0.04 trans
rs17029291 chr3 32402138 TGFBRAP1 9392 0.02 trans
rs830202 chr3 165654796 TGFBRAP1 9392 0.01 trans
rs17160578 chr7 85672108 TGFBRAP1 9392 0.09 trans
rs722970 chr7 85803264 TGFBRAP1 9392 0.04 trans
rs17324099 chr7 85856288 TGFBRAP1 9392 0.08 trans
rs12569493 chr10 74886042 TGFBRAP1 9392 0.1 trans
rs16930362 chr10 74890320 TGFBRAP1 9392 0.04 trans
rs7092445 chr10 74921991 TGFBRAP1 9392 0.13 trans
rs16915029 chr10 75001994 TGFBRAP1 9392 0.1 trans
rs12571454 chr10 75208954 TGFBRAP1 9392 0.15 trans
rs16958358 chr17 55502410 TGFBRAP1 9392 0.02 trans
rs1761450 chr19 54818034 TGFBRAP1 9392 0.04 trans
rs6032295 chr20 44178138 TGFBRAP1 9392 0.15 trans
rs6098023 chr20 53113740 TGFBRAP1 9392 0.13 trans
rs17264923 chrX 69499164 TGFBRAP1 9392 0.05 trans

Section II. Transcriptome annotation

General gene expression (GTEx)

Not available

Gene expression during devlopment (BrainCloud)

Footnote:
A total of 269 time points ploted, with n=38 fetal samples (x=1:38). Each triangle represents one time point.

Gene expression of temporal and spatial changes (BrainSpan)

Footnote:
SC: sub-cortical regions; SM: sensory-motor regions; FC: frontal cortex; and TP: temporal-parietal cortex
ST1: fetal (13 - 26 postconception weeks), ST2: early infancy to late childhood (4 months to 11 years), and ST3: adolescence to adulthood (13 - 23 years)
The bar shown representes the lower 25% and upper 25% of the expression distribution.

Top co-expressed genes in brain regions

Top 10 positively co-expressed genes
Gene Pearson's Correlation Spearman's Correlation
NOP56 0.88 0.88
DDX56 0.87 0.85
TRAPPC3 0.87 0.85
WIBG 0.87 0.87
EXOSC7 0.86 0.86
PSMD13 0.86 0.87
NGDN 0.86 0.88
KAT5 0.86 0.87
C1orf174 0.86 0.85
BCS1L 0.85 0.87
Top 10 negatively co-expressed genes
Gene Pearson's Correlation Spearman's Correlation
MT-CO2 -0.78 -0.74
AF347015.8 -0.77 -0.76
MT-CYB -0.77 -0.76
AF347015.2 -0.77 -0.77
AF347015.31 -0.76 -0.75
AF347015.27 -0.76 -0.77
AF347015.15 -0.75 -0.76
AF347015.26 -0.75 -0.77
AF347015.33 -0.75 -0.74
AF347015.9 -0.70 -0.73

Section III. Gene Ontology annotation

Cellular component 去的术语 Evidence Neuro keywords PubMed ID
GO:0005737 cytoplasm IEA -

Section IV. Protein-protein interaction annotation

Interactors Aliases B Official full name B Experimental Source PubMed ID
ACVR1B ACTRIB | ACVRLK4 | ALK4 | SKR2 activin A receptor, type IB - HPRD 11278302
ACVR2B ACTRIIB | ActR-IIB | MGC116908 activin A receptor, type IIB - HPRD 11278302
ACVRL1 ACVRLK1 | ALK-1 | ALK1 | HHT | HHT2 | ORW2 | SKR3 | TSR-I activin A receptor type II-like 1 - HPRD 11278302
ALOX5 5-LO | 5-LOX | 5LPG | LOG5 | MGC163204 arachidonate 5-lipoxygenase - HPRD,BioGRID 10051563
ALOX5 5-LO | 5-LOX | 5LPG | LOG5 | MGC163204 arachidonate 5-lipoxygenase 5LO interacts with TRAP-1. BIND 10051563
BMPR1A 10q23del | ACVRLK3 | ALK3 | CD292 bone morphogenetic protein receptor, type IA - HPRD 11278302
SMAD2 JV18 | JV18-1 | MADH2 | MADR2 | MGC22139 | MGC34440 | hMAD-2 | hSMAD2 SMAD family member 2 - HPRD 11278302
SMAD4 DPC4 | JIP | MADH4 SMAD家庭成员4 - HPRD,BioGRID 11278302
TGFB1 CED | DPD1 | TGFB | TGFbeta transforming growth factor, beta 1 Affinity Capture-Western BioGRID 11278302
TGFB2 MGC116892 | TGF-beta2 transforming growth factor, beta 2 Affinity Capture-Western BioGRID 11278302
TGFBR1 AAT5 | ACVRLK4 | ALK-5 | ALK5 | LDS1A | LDS2A | SKR4 | TGFR-1 transforming growth factor, beta receptor 1 - HPRD 11278302
TGFBR2 AAT3 | FAA3 | LDS1B | LDS2B | MFS2 | RIIC | TAAD2 | TGFR-2 | TGFbeta-RII transforming growth factor, beta receptor II (70/80kDa) - HPRD 11278302


Section V. Pathway annotation

Pathway name Pathway size # SZGR 2.0 genes in pathway Info
PID SMAD2 3PATHWAY 17 13 All SZGR 2.0 genes in this pathway
PID TGFBR PATHWAY 55 38 All SZGR 2.0 genes in this pathway
WANG CLIM2 TARGETS UP 269 146 All SZGR 2.0 genes in this pathway
MULLIGHAN MLL SIGNATURE 1 DN 242 165 All SZGR 2.0 genes in this pathway
MULLIGHAN MLL SIGNATURE 2 DN 281 186 All SZGR 2.0 genes in this pathway
JAATINEN HEMATOPOIETIC STEM CELL UP 316 190 All SZGR 2.0 genes in this pathway
LINDGREN BLADDER CANCER CLUSTER 3 UP 329 196 All SZGR 2.0 genes in this pathway
PEREZ TP53 TARGETS 1174 695 All SZGR 2.0 genes in this pathway
BROWNE HCMV INFECTION 20HR UP 240 152 All SZGR 2.0 genes in this pathway
BROWNE HCMV INFECTION 12HR UP 111 68 All SZGR 2.0 genes in this pathway
KRIGE RESPONSE TO TOSEDOSTAT 6HR DN 911 527 All SZGR 2.0 genes in this pathway
KRIGE RESPONSE TO TOSEDOSTAT 24HR DN 1011 592 All SZGR 2.0 genes in this pathway
BREDEMEYER RAG SIGNALING VIA ATM NOT VIA NFKB DN 38 23 All SZGR 2.0 genes in this pathway
CHANDRAN METASTASIS UP 221 135 All SZGR 2.0 genes in this pathway
PILON KLF1 TARGETS DN 1972 1213 All SZGR 2.0 genes in this pathway
BRUINS UVC RESPONSE EARLY LATE 317 190 All SZGR 2.0 genes in this pathway